Command line: [exonerate -m p2g --showtargetgff -q ../Sel.human/SEL15.fa -t gi|397456477|gb|JH739023.1|subseq.fa]
Hostname: [ws101062]
C4 Alignment:
------------
Query: SPP00000067_2.0 # Protein # 15 kDa selenoprotein (Sel15) # Human (Homo sapiens)
Target: gi|397456477|gb|JH739023.1|:subseq(600000,100000) Alligator mississippiensis unplaced genomic scaffold scaffold-13193, whole genome shotgun sequence
Model: protein2genome:local
Raw score: 624
Query range: 25 -> 162
Target range: 15419 -> 65849
26 : ValSerAlaPheGlyAlaGluPheSerSerGluAlaCysArgGluLeuGlyPheSerSer : 45
:!!|||!.!!:!|||.!!:!!!!.||||||||||||||||||||||||||||||||||||
LeuSerValTyrGlyThrLysLeuSerSerGluAlaCysArgGluLeuGlyPheSerSer
15420 : CTATCTGTTTATGGGACAAAATTGTCATCCGAAGCATGCAGAGAACTAGGATTTTCCAGC : 15477
46 : AsnLeuLeuCysSerSerCysAspLeuLeuGlyGlnPheAsnLeuLeuGlnLeuAspPro : 65
|||||||||||||||||||||..!|||||||||||||||!:!||| !||||||||||||
AsnLeuLeuCysSerSerCysSerLeuLeuGlyGlnPheSerLeuAsnGlnLeuAspPro
15478 : AACTTGCTATGTAGTTCTTGCAGCCTTCTTGGACAGTTTAGCCTGAATCAACTGGATCCA : 15537
66 : AspCysArgGlyCysCysGlnGluGluAlaGlnPheGluThrLysLys >>>> Targe : 82
!|||||| !||||||||||||||||||||||||||||||!:!||| 2
PheCysArgGlnCysCysGlnGluGluAlaGlnPheGluThrArgLys++
15538 : TTCTGCAGACAGTGTTGCCAAGAGGAAGCTCAGTTTGAAACTAGAAAGgt.......... : 15590
83 : t Intron 1 >>>> LeuTyrAlaGlyAlaIleLeuGluValCysGlyUnkLysLeuG : 96
7455 bp |||||||||||||||:!!||||||||||||||| |||||||
++LeuTyrAlaGlyAlaValLeuGluValCysGly***LysLeuG
15591 : ...............agCTATATGCAGGGGCTGTTCTCGAAGTGTGTGGATGAAAATTGG : 43085
97 : lyArgPheProGlnValGln{A} >>>> Target Intron 2 >>>> {la}PheV : 105
||||||||||||||||||||{|} 20092 bp {||}||||
lyArgPheProGlnValGln{A}++ ++{la}PheV
43086 : GAAGGTTCCCTCAAGTCCAG{G}gt.........................ag{CT}TTTG : 63204
106 : alArgSerAspLysProLysLeuPheArgGlyLeuGlnIleLys >>>> Target In : 120
|||||||||||||||||||||||||||||||||||||||||||| 2472
alArgSerAspLysProLysLeuPheArgGlyLeuGlnIleLys++
63205 : TCAGGAGTGACAAGCCCAAACTGTTCAGGGGACTGCAAATCAAGgt.............. : 63251
121 : tron 3 >>>> TyrValArgGlySerAspProValLeuLysLeuLeuAspAspAsnGl : 135
bp ||||||||||||||||||||||||||||||||||||||||||!.!||
++TyrValArgGlySerAspProValLeuLysLeuLeuAspAspThrGl
63252 : ...........agTATGTGCGTGGTTCTGACCCTGTACTAAAGCTGCTGGATGACACTGG : 65766
136 : yAsnIleAlaGluGluLeuSerIleLeuLysTrpAsnThrAspSerValGluGluPheLe : 155
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
yAsnIleAlaGluGluLeuSerIleLeuLysTrpAsnThrAspSerValGluGluPheLe
65767 : GAACATTGCTGAAGAACTGAGCATCCTCAAGTGGAACACAGATAGTGTAGAAGAATTCCT : 65826
156 : uSerGluLysLeuGluArgIle : 162
||||||||||||||||||||||
uSerGluLysLeuGluArgIle
65827 : GAGTGAAAAACTAGAACGTATA : 65849
vulgar: SPP00000067_2.0 25 162 . gi|397456477|gb|JH739023.1|:subseq(600000,100000) 15419 65849 + 624 M 56 168 5 0 2 I 0 27451 3 0 2 M 21 63 S 0 1 5 0 2 I 0 20088 3 0 2 S 1 2 M 16 48 5 0 2 I 0 2468 3 0 2 M 43 129
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-15
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local gene 15420 65849 624 + . gene_id 1 ; sequence SPP00000067_2.0 ; gene_orientation +
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local cds 15420 15587 . + .
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local exon 15420 15587 . + . insertions 0 ; deletions 0
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local splice5 15588 15589 . + . intron_id 1 ; splice_site "GT"
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local intron 15588 43042 . + . intron_id 1
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local splice3 43041 43042 . + . intron_id 0 ; splice_site "AG"
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local cds 43043 43106 . + .
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local exon 43043 43106 . + . insertions 0 ; deletions 0
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local splice5 43107 43108 . + . intron_id 2 ; splice_site "GT"
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local intron 43107 63198 . + . intron_id 2
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local splice3 63197 63198 . + . intron_id 1 ; splice_site "AG"
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local cds 63199 63248 . + .
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local exon 63199 63248 . + . insertions 0 ; deletions 0
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local splice5 63249 63250 . + . intron_id 3 ; splice_site "GT"
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local intron 63249 65720 . + . intron_id 3
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local splice3 65719 65720 . + . intron_id 2 ; splice_site "AG"
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local cds 65721 65849 . + .
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local exon 65721 65849 . + . insertions 0 ; deletions 0
gi|397456477|gb|JH739023.1|:subseq(600000,100000) exonerate:protein2genome:local similarity 15420 65849 624 + . alignment_id 1 ; Query SPP00000067_2.0 ; Align 15420 26 168 ; Align 43043 82 63 ; Align 63201 104 48 ; Align 65721 120 129
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis